Slc19a3 (solute carrier family 19 member 3) - Rat Genome Database

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Gene: Slc19a3 (solute carrier family 19 member 3) Rattus norvegicus
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Symbol: Slc19a3
Name: solute carrier family 19 member 3
RGD ID: 1311413
Description: Predicted to enable thiamine transmembrane transporter activity. Predicted to be involved in thiamine transmembrane transport. Predicted to be active in plasma membrane. Biomarker of chronic kidney disease. Human ortholog(s) of this gene implicated in biotin-responsive basal ganglia disease. Orthologous to human SLC19A3 (solute carrier family 19 member 3); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; lead diacetate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC316559; solute carrier family 19 (sodium/hydrogen exchanger), member 3; solute carrier family 19 (thiamine transporter), member 3; solute carrier family 19, member 3; thiamine transporter 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2984,275,722 - 84,299,368 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl984,277,024 - 84,299,337 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx992,707,216 - 92,729,248 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0997,835,678 - 97,857,714 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0996,218,535 - 96,240,515 (-)NCBIRnor_WKY
Rnor_6.0988,762,775 - 88,828,553 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl988,764,073 - 88,816,898 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0988,510,631 - 88,572,788 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4982,323,669 - 82,346,559 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1982,507,109 - 82,532,580 (-)NCBI
Celera981,719,462 - 81,741,701 (-)NCBICelera
Cytogenetic Map9q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Effect of chronic kidney disease on the expression of thiamin and folic acid transporters. Bukhari FJ, etal., Nephrol Dial Transplant. 2011 Jul;26(7):2137-44. doi: 10.1093/ndt/gfq675. Epub 2010 Dec 13.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:19879271   PMID:35512554  


Genomics

Comparative Map Data
Slc19a3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2984,275,722 - 84,299,368 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl984,277,024 - 84,299,337 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx992,707,216 - 92,729,248 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0997,835,678 - 97,857,714 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0996,218,535 - 96,240,515 (-)NCBIRnor_WKY
Rnor_6.0988,762,775 - 88,828,553 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl988,764,073 - 88,816,898 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0988,510,631 - 88,572,788 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4982,323,669 - 82,346,559 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1982,507,109 - 82,532,580 (-)NCBI
Celera981,719,462 - 81,741,701 (-)NCBICelera
Cytogenetic Map9q34NCBI
SLC19A3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382227,683,763 - 227,718,028 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2227,683,763 - 227,718,028 (-)EnsemblGRCh38hg38GRCh38
GRCh372228,548,479 - 228,582,744 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362228,258,170 - 228,290,989 (-)NCBINCBI36Build 36hg18NCBI36
Build 342228,375,430 - 228,408,231NCBI
Celera2222,319,407 - 222,352,201 (-)NCBICelera
Cytogenetic Map2q36.3NCBI
HuRef2220,392,670 - 220,425,503 (-)NCBIHuRef
CHM1_12228,556,170 - 228,588,989 (-)NCBICHM1_1
T2T-CHM13v2.02228,166,399 - 228,200,658 (-)NCBIT2T-CHM13v2.0
Slc19a3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39182,990,242 - 83,016,541 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl182,990,244 - 83,016,169 (-)EnsemblGRCm39 Ensembl
GRCm38183,012,523 - 83,038,820 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl183,012,523 - 83,038,448 (-)EnsemblGRCm38mm10GRCm38
MGSCv37183,009,098 - 83,035,023 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36182,892,821 - 82,917,472 (-)NCBIMGSCv36mm8
Celera183,077,119 - 83,103,116 (-)NCBICelera
Cytogenetic Map1C5NCBI
cM Map142.65NCBI
Slc19a3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554536,935,371 - 6,958,103 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554536,935,372 - 6,957,808 (+)NCBIChiLan1.0ChiLan1.0
SLC19A3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B233,736,721 - 233,767,935 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B233,736,050 - 233,764,514 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B114,925,990 - 114,957,841 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
LOC486151
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12540,411,489 - 40,442,183 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2540,412,427 - 40,438,042 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2541,028,950 - 41,066,567 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02540,657,948 - 40,695,609 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2540,657,948 - 40,675,743 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12540,594,535 - 40,632,168 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02540,436,167 - 40,473,798 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02540,609,381 - 40,647,026 (-)NCBIUU_Cfam_GSD_1.0
LOC101963615
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303182,599,704 - 182,624,242 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365258,322,602 - 8,340,082 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365258,323,550 - 8,339,686 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC19A3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15129,071,582 - 129,096,282 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115129,071,563 - 129,096,338 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215142,948,609 - 142,973,510 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Slc19a3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248431,900,240 - 1,916,610 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slc19a3
207 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:23
Count of miRNA genes:23
Interacting mature miRNAs:23
Transcripts:ENSRNOT00000021373
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92207116986369743Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)93696235992058970Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
6903941Pur31Proteinuria QTL 310.036urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)94019418885194188Rat
11353949Bp393Blood pressure QTL 393arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94019418885194188Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94279151387976209Rat
11353951Bp394Blood pressure QTL 394arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94464992189649921Rat
12879506Pur33Proteinuria QTL 33urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)94464992189649921Rat
11353957Bmd92Bone mineral density QTL 920.01tibia mineral mass (VT:1000283)volumetric bone mineral density (CMO:0001553)94611419991114199Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94859825193598251Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)977813894101597663Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)97927151191616855Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)97927151191616855Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)97927151191616855Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 17
Low 1 12 12 12 50 12 10 2
Below cutoff 2 25 27 23 4 23 3 4 24 6 29 6 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000083667   ⟹   ENSRNOP00000071722
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl984,277,024 - 84,299,337 (-)Ensembl
Rnor_6.0 Ensembl988,764,073 - 88,816,898 (-)Ensembl
RefSeq Acc Id: NM_001108228   ⟹   NP_001101698
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2984,277,024 - 84,299,016 (-)NCBI
Rnor_6.0988,764,073 - 88,828,412 (-)NCBI
Rnor_5.0988,510,631 - 88,572,788 (-)NCBI
RGSC_v3.4982,323,669 - 82,346,559 (-)RGD
Celera981,719,462 - 81,741,701 (-)RGD
Sequence:
RefSeq Acc Id: XM_039083686   ⟹   XP_038939614
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2984,275,722 - 84,299,368 (-)NCBI
RefSeq Acc Id: XM_039083687   ⟹   XP_038939615
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2984,275,722 - 84,299,368 (-)NCBI
RefSeq Acc Id: XM_039083688   ⟹   XP_038939616
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2984,275,722 - 84,299,368 (-)NCBI
RefSeq Acc Id: XM_039083689   ⟹   XP_038939617
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2984,275,722 - 84,299,368 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001101698   ⟸   NM_001108228
- UniProtKB: A0A0G2K171 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071722   ⟸   ENSRNOT00000083667
RefSeq Acc Id: XP_038939616   ⟸   XM_039083688
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038939614   ⟸   XM_039083686
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K171 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038939617   ⟸   XM_039083689
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038939615   ⟸   XM_039083687
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K171 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K171-F1-model_v2 AlphaFold A0A0G2K171 1-481 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311413 AgrOrtholog
BioCyc Gene G2FUF-26967 BioCyc
Ensembl Genes ENSRNOG00000057256 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000071722 ENTREZGENE
  ENSRNOP00000071722.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000083667 ENTREZGENE
  ENSRNOT00000083667.2 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1250.20 UniProtKB/TrEMBL
InterPro Folate_carrier UniProtKB/TrEMBL
  MFS_trans_sf UniProtKB/TrEMBL
KEGG Report rno:316559 UniProtKB/TrEMBL
NCBI Gene 316559 ENTREZGENE
PANTHER Folate_carrier UniProtKB/TrEMBL
Pfam Folate_carrier UniProtKB/TrEMBL
PhenoGen Slc19a3 PhenoGen
PIRSF Folate_carrier UniProtKB/TrEMBL
Superfamily-SCOP MFS_gen_substrate_transporter UniProtKB/TrEMBL
TIGRFAMs rfc UniProtKB/TrEMBL
UniProt A0A0G2K171 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-25 Slc19a3  solute carrier family 19 member 3  Slc19a3  solute carrier family 19 (thiamine transporter), member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-08-02 Slc19a3  solute carrier family 19 (thiamine transporter), member 3  Slc19a3  solute carrier family 19, member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-19 Slc19a3  solute carrier family 19, member 3  Slc19a3  solute carrier family 19 (sodium/hydrogen exchanger), member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Slc19a3  solute carrier family 19 (sodium/hydrogen exchanger), member 3  Slc19a3_predicted  solute carrier family 19, member 3 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Slc19a3_predicted  solute carrier family 19, member 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED